Article Figures & Data
Figures
- Figure 1.
A, IC50 values for a panel of 16 NSCLC cell lines responding to TSA treatment as determined via MTT assay. Cell lines were classified as highly sensitive (IC50 ≤ 1 μmol/L) and resistant (IC50 < 15 μmol/L) to TSA.B, IC50 values for a panel of 16 NSCLC cell lines responding to vorinostat treatment as determined via MTT assay. Cell lines were classified as highly sensitive (IC50 ≤ 3 μmol/L) and resistant (IC50 < 15 μmol/L) to vorinostat. C, correlation between the responsiveness to TSA and vorinostat in a panel of 16 NSCLC cell lines (Spearman rank correlation r = 0.949, P < 0.0001).
- Figure 2.
Contribution of the nine genes associated with HDAC inhibitor sensitivity. It was calculated based on the independent Partial Least Squares analysis.
Tables
- Table 1.
Factors associated with TSA sensitivity based on expression profiles, sensitivity, and pathway analyses in the 16 NSCLC cell line panel and their functions
Probe set ID Gene symbol Gene title Genes incorporated by pathway analysis Correlation coefficients 201064_s_at PABPC4 Poly(A) binding protein, cytoplasmic 4 (inducible form) 201737_s_at MARCH6 Membrane-associated ring finger (C3HC4) 6 209339_at SIAH2 Seven in absentia homologue 2 (Drosophila) 212887_at SEC23A Sec23 homologue A (Saccharomyces cerevisiae) + −0.734 214857_at C10orf95 Chromosome 10 open reading frame 95 217100_s_at UBXD7 UBX domain containing 7 201762_s_at PSME2 Proteasome (prosome, macropain) activator subunit 2 (PA28 β) + −0.683 201919_at SLC25A36 Solute carrier family 25, member 36 201993_x_at HNRPDL Heterogeneous nuclear ribonucleoprotein D like + 0.678 202731_at PDCD4 Programmed cell death 4 (neoplastic transformation inhibitor) + 0.724 208799_at PSMB5 Proteasome (prosome, macropain) subunit, β type, 5 + −0.688 208912_s_at CNP 2′,3′-cyclic nucleotide 3′ phosphodiesterase 209149_s_at TM9SF1 Transmembrane 9 superfamily member 1 + −0.672 209150_s_at TM9SF1 Transmembrane 9 superfamily member 1 + −0.672 210519_s_at NQO1 NAD(P)H dehydrogenase, quinone 1 + −0.690 211730_s_at POLR2L Polymerase (RNA) II (DNA directed) polypeptide L, 7.6-kDa polymerase (RNA) II (DNA directed) polypeptide L, 7.6 kDa 212082_s_at MYL6 Myosin, light polypeptide 6, alkali, smooth muscle and nonmuscle + −0.718 219717_at FLJ20280 Hypothetical protein FLJ20280 220200_s_at SETD8 SET domain containing (lysine methyltransferase) 8 - Table 2.
Validation of predictive performance of the nine genes by examining the SVM value in an independent set of nine NSCLC cell lines
Cell lines IC50 (TSA) IC50 (vorinostat) Predicted class True class (TSA) True class (vorinostat) 1 LCI-sq 0.19 2.14 Sensitive Highly sensitive Highly sensitive 2 VMRC-LCD 0.27 0.87 Sensitive Highly sensitive Highly sensitive 3 Lu65 0.34 3.74 Sensitive Highly sensitive Intermediate sensitive 4 LCOK 0.52 3.66 Sensitive Highly sensitive Intermediate sensitive 5 NCI-H1650 0.89 9.37 Sensitive Highly sensitive Intermediate sensitive 6 LC1F 1.26 4.82 Sensitive Intermediate sensitive Intermediate sensitive 7 NCI-H1975 1.56 3.96 Sensitive Intermediate sensitive Intermediate sensitive 8 NCI-H441 0.77 8.30 Sensitive Highly sensitive Intermediate sensitive 9 Calu-6 0.58 2.10 Sensitive Highly sensitive Highly sensitive NOTE: Cell lines were classified as highly sensitive (IC50 ≤ 1 μmol/L), intermediate sensitive (1 μmol/L < IC50 ≤ 15 μmol/L), and resistant (IC50 < 15 μmol/L) to TSA. In relation to response to vorinostat, cell lines were classified as highly sensitive (IC50 ≤ 3 μmol/L), intermediate sensitive (3 μmol/L < IC50 ≤15 μmol/L), and resistant (IC50 < 15 μmol/L).
Supplementary Material, Miyanaga et al
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Volume 7, Issue 7
